Large-scale phylogenomic analysis resolves a backbone phylogeny in ferns
文献类型：期刊论文
| 作者 | Shen, Hui; Jin, Dongmei; Shu, Jiang-Ping; Zhou, Xi-Le; Lei, Ming4; Wei, Ran; Shang, Hui; Wei, Hong-Jin; Zhang, Rui; Liu, Li |
| 刊名 | GIGASCIENCE
 |
| 出版日期 | 2017 |
| 卷号 | 7期号:2 |
| 关键词 | phylogenomic monilophytes evolution sporangium transcriptome |
| ISSN号 | 2047-217X |
| DOI | 10.1111/tpj.13583 |
| 文献子类 | Article |
| 英文摘要 | Background: Ferns, originated about 360 million years ago, are the sister group of seed plants. Despite the remarkable progress in our understanding of fern phylogeny, with conflicting molecular evidence and different morphological interpretations, relationships among major fern lineages remain controversial. Results: With the aim to obtain a robust fern phylogeny, we carried out a large-scale phylogenomic analysis using high-quality transcriptome sequencing data, which covered 69 fern species from 38 families and 11 orders. Both coalescent-based and concatenation-based methods were applied to both nucleotide and amino acid sequences in species tree estimation. The resulting topologies are largely congruent with each other, except for the placement of Angiopteris fokiensis, Cheiropleuria bicuspis, Diplaziopsis brunoniana, Matteuccia struthiopteris, Elaphoglossum mcclurei, and Tectaria subpedata. Conclusions: Our result confirmed that Equisetales is sister to the rest of ferns, and Dennstaedtiaceae is sister to eupolypods. Moreover, our result strongly supported some relationships different from the current view of fern phylogeny, including that Marattiaceae may be sister to the monophyletic clade of Psilotaceae and Ophioglossaceae; that Gleicheniaceae and Hymenophyllaceae form a monophyletic clade sister to Dipteridaceae; and that Aspleniaceae is sister to the rest of the groups in eupolypods II. These results were interpreted with morphological traits, especially sporangia characters, and a new evolutionary route of sporangial annulus in ferns was suggested. This backbone phylogeny in ferns sets a foundation for further studies in biology and evolution in ferns, and therefore in plants. |
| 学科主题 | Plant Sciences |
| 出版地 | OXFORD |
| WOS关键词 | RNA-SEQ ; MOLECULAR PHYLOGENY ; CLASSIFICATION ; TREE ; MORPHOLOGY ; EVOLUTION ; RELATIVES ; INSIGHTS |
| 语种 | 英语 |
| WOS记录号 | WOS:000405572800010 |
| 出版者 | OXFORD UNIV PRESS |
| 资助机构 | Shanghai Landscaping and City Appearance Administrative Bureau of China [G142433, G152420, F112422] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31370234] |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/22283]  |
| 专题 | 植物研究所_系统与进化植物学研究中心_系统与进化植物学研究中心_学位论文 |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Chenshan Plant Sci Res Ctr, 3888 Chenhua Rd, Shanghai 201602, Peoples R China 2.Majorbio Bioinformat Res Inst, Bldg 3,Lane 3399,Kangxin Rd,Int Med Pk, Shanghai 201320, Peoples R China 3.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, 20 Nanxincun, Beijing 100093, Peoples R China 4.Shanghai Chenshan Bot Garden, Shanghai Key Lab Plant Funct Genom & Resources, 3888 Chenhua Rd, Shanghai 201602, Peoples R China |
| 推荐引用方式 GB/T 7714 | Shen, Hui,Jin, Dongmei,Shu, Jiang-Ping,et al. Large-scale phylogenomic analysis resolves a backbone phylogeny in ferns[J]. GIGASCIENCE,2017,7(2). |
| APA | Shen, Hui.,Jin, Dongmei.,Shu, Jiang-Ping.,Zhou, Xi-Le.,Lei, Ming.,...&Yan, Yue-Hong.(2017).Large-scale phylogenomic analysis resolves a backbone phylogeny in ferns.GIGASCIENCE,7(2). |
| MLA | Shen, Hui,et al."Large-scale phylogenomic analysis resolves a backbone phylogeny in ferns".GIGASCIENCE 7.2(2017). |
入库方式： OAI收割
来源：植物研究所
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